title: Identifying mRNA editing deaminase targets by RNA-Seq.
abstract: RNA editing deaminases act on a variety of targets in different organisms. A number of such enzymes have been shown to act on mRNA, with the resultant nucleotide changes modifying a transcript's information content. Though the deaminase activity of mRNA editing enzymes is readily demonstrated in vitro, identifying their physiological targets has proved challenging. Recent advances in ultra high-throughput sequencing technologies have allowed for whole transcriptome sequencing and expression profiling (RNA-Seq). We have developed a system to identify novel mRNA editing deamination targets based on comparative analysis of RNA-Seq data. The efficacy and utility of this approach is demonstrated for APOBEC1, a cytidine deaminase with a known and well-characterized mRNA editing target in the mammalian small intestine.
authors.affiliation: Laboratory of Lymphocyte Biology, The Rockefeller University, New York, NY, USA.
authors.forename: Brad R
authors.initials: BR
authors.lastname: Rosenberg
authors.forename: Scott
authors.initials: S
authors.lastname: Dewell
authors.forename: F Nina
authors.initials: FN
authors.lastname: Papavasiliou
mesh_terms: D000071479:APOBEC-1 Deaminase; D000818:Animals; D001483:Base Sequence; D003564:Cytidine Deaminase / Q000378:metabolism*; D006801:Humans; D017393:RNA Editing; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism*; D017423:Sequence Analysis, RNA / Q000379:methods*
chemical_list: D012333:RNA, Messenger; D000071479:APOBEC-1 Deaminase; C000605089:APOBEC1 protein, human; D003564:Cytidine Deaminase